How To Install pbhoney on Debian 9
Introduction
In this tutorial we learn how to install pbhoney on Debian 9.
What is pbhoney
pbhoney is:
PBHoney is an implementation of two variant-identification approaches designed to exploit the high mappability of long reads (i.e., greater than 10,000 bp). PBHoney considers both intra-read discordance and soft-clipped tails of long reads to identify structural variants.
PBHoney is part of the PBSuite.
There are three methods to install pbhoney on Debian 9. We can use apt-get, apt and aptitude. In the following sections we will describe each method. You can choose one of them.
Install pbhoney Using apt-get
Update apt database with apt-get using the following command.
sudo apt-get update
After updating apt database, We can install pbhoney using apt-get by running the following command:
sudo apt-get -y install pbhoney
Install pbhoney Using apt
Update apt database with apt using the following command.
sudo apt update
After updating apt database, We can install pbhoney using apt by running the following command:
sudo apt -y install pbhoney
Install pbhoney Using aptitude
If you want to follow this method, you might need to install aptitude first since aptitude is usually not installed by default on Debian. Update apt database with aptitude using the following command.
sudo aptitude update
After updating apt database, We can install pbhoney using aptitude by running the following command:
sudo aptitude -y install pbhoney
How To Uninstall pbhoney on Debian 9
To uninstall only the pbhoney package we can use the following command:
sudo apt-get remove pbhoney
Uninstall pbhoney And Its Dependencies
To uninstall pbhoney and its dependencies that are no longer needed by Debian 9, we can use the command below:
sudo apt-get -y autoremove pbhoney
Remove pbhoney Configurations and Data
To remove pbhoney configuration and data from Debian 9 we can use the following command:
sudo apt-get -y purge pbhoney
Remove pbhoney configuration, data, and all of its dependencies
We can use the following command to remove pbhoney configurations, data and all of its dependencies, we can use the following command:
sudo apt-get -y autoremove --purge pbhoney
Dependencies
pbhoney have the following dependencies:
References
Summary
In this tutorial we learn how to install pbhoney package on Debian 9 using different package management tools: apt, apt-get and aptitude.